This package implements the Sim4cc algorithm for cross-species
alignment of expressed DNA and genomic sequences, described in:

L. Zhou, M. Pertea, A. Delcher, and L. Florea (2009)
"Sim4cc: a cross-species spliced alignment program",
Nucleic Acids Res. 37(11):e80.

and:

L. Zhou, M. Pertea, A. Delcher, and L. Florea (2008)
"Universal spaced seeds: Improving the accuracy of cross-species
cDNA-to-genome alignment". CSHL 2007 & ISMB 2008.


Copyright (C) 2008-2010 Liliana Florea, Leming Zhou


This package includes portions copyright by:

Copyright (C) 1998-2003  Liliana Florea (sim4)
Copyright (C) 1998-2003  Scott Schwartz (psublast)
Copyright (C) 2001-2009  Mihaela Pertea (GeneSplicer)
Copyright (C) 1998-2009  Art Delcher    (Glimmer)

This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation; either version 2 of the License, or
(at your option) any later version.

This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
GNU General Public License for more details.

You should have received a copy of the GNU General Public License
along with this program; if not, write to the Free Software
Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
